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        If you use plots from MultiQC in a publication or presentation, please cite:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411
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        About MultiQC

        This report was generated using MultiQC, version 1.28

        You can see a YouTube video describing how to use MultiQC reports here: https://youtu.be/qPbIlO_KWN0

        For more information about MultiQC, including other videos and extensive documentation, please visit http://multiqc.info

        You can report bugs, suggest improvements and find the source code for MultiQC on GitHub: https://github.com/MultiQC/MultiQC

        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

        Report generated on 2025-04-12, 16:34 EDT based on data in: /ocean/projects/agr250001p/randalld/final-project-lung/microbiome_project/fastqc_raw_data_out

        Because this report contains a lot of samples, you may need to click 'Show plot' to see some graphs.

        General Statistics

        Showing 114/114 rows and 4/6 columns.
        Sample NameDupsGCAvg lenMedian lenFailedSeqs
        fastqc_raw_data_out | SRR2728121_1
        61.5%
        33.0%
        51bp
        51bp
        27%
        4.0M
        fastqc_raw_data_out | SRR3728031_1
        87.7%
        44.0%
        289bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728033_1
        86.1%
        45.0%
        288bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728035_1
        88.3%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728040_1
        86.4%
        44.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728043_1
        62.2%
        43.0%
        294bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728051_1
        89.0%
        44.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728053_1
        89.9%
        43.0%
        291bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728054_1
        88.5%
        44.0%
        288bp
        296bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728056_1
        88.7%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728058_1
        88.6%
        44.0%
        291bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728060_1
        90.4%
        44.0%
        291bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728066_1
        90.4%
        43.0%
        291bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728067_1
        85.9%
        43.0%
        290bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728069_1
        57.9%
        44.0%
        293bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728074_1
        90.5%
        44.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728078_1
        88.1%
        44.0%
        289bp
        296bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728107_1
        61.4%
        44.0%
        290bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728108_1
        64.4%
        44.0%
        289bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728112_1
        90.4%
        43.0%
        291bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728127_1
        60.4%
        45.0%
        294bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728130_1
        59.5%
        44.0%
        289bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728133_1
        90.6%
        44.0%
        291bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728134_1
        90.7%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728137_1
        33.6%
        45.0%
        290bp
        300bp
        30%
        0.0M
        fastqc_raw_data_out | SRR3728138_1
        78.5%
        43.0%
        290bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728140_1
        86.6%
        44.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728142_1
        87.1%
        43.0%
        288bp
        296bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728143_1
        84.7%
        43.0%
        288bp
        296bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728157_1
        60.2%
        44.0%
        291bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728161_1
        47.2%
        45.0%
        290bp
        300bp
        30%
        0.0M
        fastqc_raw_data_out | SRR3728166_1
        87.7%
        44.0%
        289bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728175_1
        84.7%
        44.0%
        289bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728184_1
        85.5%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728201_1
        85.1%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728202_1
        86.8%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728204_1
        90.2%
        43.0%
        291bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728208_1
        66.4%
        43.0%
        290bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728212_1
        75.6%
        43.0%
        291bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728216_1
        86.6%
        44.0%
        289bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728219_1
        57.3%
        44.0%
        294bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728230_1
        55.2%
        44.0%
        292bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728231_1
        88.6%
        43.0%
        291bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728232_1
        87.4%
        43.0%
        289bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728237_1
        87.7%
        44.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728244_1
        86.4%
        48.0%
        287bp
        296bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728245_1
        83.5%
        44.0%
        291bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728248_1
        89.3%
        44.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728250_1
        88.7%
        44.0%
        291bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728256_1
        86.2%
        43.0%
        288bp
        296bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728257_1
        88.7%
        43.0%
        289bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728259_1
        87.4%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728261_1
        89.5%
        44.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728262_1
        86.6%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728263_1
        87.6%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728264_1
        89.5%
        44.0%
        291bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728266_1
        88.5%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728268_1
        87.7%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728269_1
        88.3%
        44.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728270_1
        87.7%
        44.0%
        289bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728272_1
        89.1%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728273_1
        91.2%
        43.0%
        289bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728275_1
        87.9%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728277_1
        89.9%
        43.0%
        291bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728278_1
        89.1%
        43.0%
        291bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728281_1
        89.9%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728283_1
        88.5%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728284_1
        90.0%
        43.0%
        291bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728286_1
        84.7%
        43.0%
        291bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728287_1
        87.7%
        43.0%
        291bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728291_1
        89.4%
        44.0%
        291bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728293_1
        91.7%
        43.0%
        291bp
        300bp
        40%
        0.2M
        fastqc_raw_data_out | SRR3728295_1
        91.6%
        43.0%
        291bp
        300bp
        40%
        0.2M
        fastqc_raw_data_out | SRR3728304_1
        87.0%
        43.0%
        288bp
        296bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728305_1
        90.8%
        43.0%
        289bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728306_1
        88.2%
        44.0%
        289bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728309_1
        87.0%
        43.0%
        289bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728314_1
        88.6%
        43.0%
        290bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3728316_1
        83.9%
        43.0%
        290bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3728318_1
        90.2%
        43.0%
        289bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991445_1
        92.5%
        44.0%
        298bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991445_2
        86.3%
        43.0%
        282bp
        284bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991454_1
        92.2%
        44.0%
        298bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991454_2
        86.3%
        43.0%
        283bp
        286bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991461_1
        91.1%
        44.0%
        297bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3991461_2
        84.7%
        43.0%
        283bp
        286bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3991462_1
        70.2%
        44.0%
        296bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3991462_2
        43.9%
        43.0%
        278bp
        280bp
        30%
        0.0M
        fastqc_raw_data_out | SRR3991470_1
        92.8%
        45.0%
        297bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991470_2
        87.2%
        44.0%
        279bp
        280bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991528_1
        89.0%
        46.0%
        296bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991528_2
        79.6%
        44.0%
        278bp
        280bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991549_1
        90.5%
        45.0%
        297bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3991549_2
        84.0%
        44.0%
        281bp
        284bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3991561_1
        93.7%
        44.0%
        298bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991561_2
        88.7%
        43.0%
        283bp
        286bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991564_1
        90.0%
        44.0%
        297bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3991564_2
        83.1%
        43.0%
        282bp
        284bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3991566_1
        89.0%
        45.0%
        296bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3991566_2
        80.7%
        45.0%
        279bp
        280bp
        30%
        0.0M
        fastqc_raw_data_out | SRR3991577_1
        93.0%
        44.0%
        298bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991577_2
        86.9%
        43.0%
        283bp
        286bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991580_1
        91.5%
        45.0%
        297bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991580_2
        85.5%
        44.0%
        281bp
        284bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991585_1
        93.3%
        44.0%
        298bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991585_2
        87.8%
        43.0%
        284bp
        288bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991586_1
        94.2%
        44.0%
        298bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991586_2
        88.8%
        43.0%
        279bp
        280bp
        50%
        0.1M
        fastqc_raw_data_out | SRR3991591_1
        92.5%
        48.0%
        297bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991591_2
        89.4%
        48.0%
        277bp
        278bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991594_1
        90.6%
        44.0%
        297bp
        300bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3991594_2
        84.3%
        43.0%
        283bp
        286bp
        40%
        0.0M
        fastqc_raw_data_out | SRR3991595_1
        90.6%
        45.0%
        297bp
        300bp
        40%
        0.1M
        fastqc_raw_data_out | SRR3991595_2
        85.5%
        44.0%
        281bp
        284bp
        40%
        0.1M

        FastQC

        Version: 0.11.9

        Quality control tool for high throughput sequencing data.URL: http://www.bioinformatics.babraham.ac.uk/projects/fastqc

        Sequence Counts

        Sequence counts for each sample. Duplicate read counts are an estimate only.

        This plot show the total number of reads, broken down into unique and duplicate if possible (only more recent versions of FastQC give duplicate info).

        You can read more about duplicate calculation in the FastQC documentation. A small part has been copied here for convenience:

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        Created with MultiQC

        Sequence Quality Histograms

        The mean quality value across each base position in the read.

        To enable multiple samples to be plotted on the same graph, only the mean quality scores are plotted (unlike the box plots seen in FastQC reports).

        Taken from the FastQC help:

        The y-axis on the graph shows the quality scores. The higher the score, the better the base call. The background of the graph divides the y axis into very good quality calls (green), calls of reasonable quality (orange), and calls of poor quality (red). The quality of calls on most platforms will degrade as the run progresses, so it is common to see base calls falling into the orange area towards the end of a read.

        Created with MultiQC

        Per Sequence Quality Scores

        The number of reads with average quality scores. Shows if a subset of reads has poor quality.

        From the FastQC help:

        The per sequence quality score report allows you to see if a subset of your sequences have universally low quality values. It is often the case that a subset of sequences will have universally poor quality, however these should represent only a small percentage of the total sequences.

        Created with MultiQC

        Per Base Sequence Content

        The proportion of each base position for which each of the four normal DNA bases has been called.

        To enable multiple samples to be shown in a single plot, the base composition data is shown as a heatmap. The colours represent the balance between the four bases: an even distribution should give an even muddy brown colour. Hover over the plot to see the percentage of the four bases under the cursor.

        To see the data as a line plot, as in the original FastQC graph, click on a sample track.

        From the FastQC help:

        Per Base Sequence Content plots out the proportion of each base position in a file for which each of the four normal DNA bases has been called.

        In a random library you would expect that there would be little to no difference between the different bases of a sequence run, so the lines in this plot should run parallel with each other. The relative amount of each base should reflect the overall amount of these bases in your genome, but in any case they should not be hugely imbalanced from each other.

        It's worth noting that some types of library will always produce biased sequence composition, normally at the start of the read. Libraries produced by priming using random hexamers (including nearly all RNA-Seq libraries) and those which were fragmented using transposases inherit an intrinsic bias in the positions at which reads start. This bias does not concern an absolute sequence, but instead provides enrichement of a number of different K-mers at the 5' end of the reads. Whilst this is a true technical bias, it isn't something which can be corrected by trimming and in most cases doesn't seem to adversely affect the downstream analysis.

        Click a sample row to see a line plot for that dataset.
        Rollover for sample name
        Position: -
        %T: -
        %C: -
        %A: -
        %G: -

        Per Sequence GC Content

        The average GC content of reads. Normal random library typically have a roughly normal distribution of GC content.

        From the FastQC help:

        This module measures the GC content across the whole length of each sequence in a file and compares it to a modelled normal distribution of GC content.

        In a normal random library you would expect to see a roughly normal distribution of GC content where the central peak corresponds to the overall GC content of the underlying genome. Since we don't know the GC content of the genome the modal GC content is calculated from the observed data and used to build a reference distribution.

        An unusually shaped distribution could indicate a contaminated library or some other kinds of biased subset. A normal distribution which is shifted indicates some systematic bias which is independent of base position. If there is a systematic bias which creates a shifted normal distribution then this won't be flagged as an error by the module since it doesn't know what your genome's GC content should be.

        Created with MultiQC

        Per Base N Content

        The percentage of base calls at each position for which an N was called.

        From the FastQC help:

        If a sequencer is unable to make a base call with sufficient confidence then it will normally substitute an N rather than a conventional base call. This graph shows the percentage of base calls at each position for which an N was called.

        It's not unusual to see a very low proportion of Ns appearing in a sequence, especially nearer the end of a sequence. However, if this proportion rises above a few percent it suggests that the analysis pipeline was unable to interpret the data well enough to make valid base calls.

        Created with MultiQC

        Sequence Length Distribution

        The distribution of fragment sizes (read lengths) found. See the FastQC help

        Created with MultiQC

        Sequence Duplication Levels

        The relative level of duplication found for every sequence.

        From the FastQC Help:

        In a diverse library most sequences will occur only once in the final set. A low level of duplication may indicate a very high level of coverage of the target sequence, but a high level of duplication is more likely to indicate some kind of enrichment bias (e.g. PCR over amplification). This graph shows the degree of duplication for every sequence in a library: the relative number of sequences with different degrees of duplication.

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        In a properly diverse library most sequences should fall into the far left of the plot in both the red and blue lines. A general level of enrichment, indicating broad oversequencing in the library will tend to flatten the lines, lowering the low end and generally raising other categories. More specific enrichments of subsets, or the presence of low complexity contaminants will tend to produce spikes towards the right of the plot.

        Created with MultiQC

        Overrepresented sequences by sample

        The total amount of overrepresented sequences found in each library.

        FastQC calculates and lists overrepresented sequences in FastQ files. It would not be possible to show this for all samples in a MultiQC report, so instead this plot shows the number of sequences categorized as overrepresented.

        Sometimes, a single sequence may account for a large number of reads in a dataset. To show this, the bars are split into two: the first shows the overrepresented reads that come from the single most common sequence. The second shows the total count from all remaining overrepresented sequences.

        From the FastQC Help:

        A normal high-throughput library will contain a diverse set of sequences, with no individual sequence making up a tiny fraction of the whole. Finding that a single sequence is very overrepresented in the set either means that it is highly biologically significant, or indicates that the library is contaminated, or not as diverse as you expected.

        FastQC lists all the sequences which make up more than 0.1% of the total. To conserve memory only sequences which appear in the first 100,000 sequences are tracked to the end of the file. It is therefore possible that a sequence which is overrepresented but doesn't appear at the start of the file for some reason could be missed by this module.

        Created with MultiQC

        Top overrepresented sequences

        Top overrepresented sequences across all samples. The table shows 20 most overrepresented sequences across all samples, ranked by the number of samples they occur in.

        Showing 20/20 rows and 3/3 columns.
        Overrepresented sequenceReportsOccurrences% of all reads
        ACACTCCTACGGGAGGCAGCAGTGATTAACCTTTAGCAATAAACGAAAGT
        93
        366240
        3.1376%
        TACACTCCTACGGGAGGCAGCAGTGATTAACCTTTAGCAATAAACGAAAG
        93
        342238
        2.9319%
        CACTCCTACGGGAGGCAGCAGTGATTAACCTTTAGCAATAAACGAAAGTT
        93
        324892
        2.7833%
        CGTACACTCCTACGGGAGGCAGCAGTGATTAACCTTTAGCAATAAACGAA
        93
        321105
        2.7509%
        ACTCCTACGGGAGGCAGCAGTGATTAACCTTTAGCAATAAACGAAAGTTT
        93
        291305
        2.4956%
        ACGTACACTCCTACGGGAGGCAGCAGTGATTAACCTTTAGCAATAAACGA
        93
        320344
        2.7444%
        GTACACTCCTACGGGAGGCAGCAGTGATTAACCTTTAGCAATAAACGAAA
        93
        282578
        2.4208%
        GTACACTCCTGCGGGAGGCAGCAGTGATTAACCTTTAGCAATAAACGAAA
        93
        40013
        0.3428%
        TACACTCCTGCGGGAGGCAGCAGTGATTAACCTTTAGCAATAAACGAAAG
        92
        40460
        0.3466%
        ACTCCTGCGGGAGGCAGCAGTGATTAACCTTTAGCAATAAACGAAAGTTT
        91
        60003
        0.5140%
        ACACTCCTGCGGGAGGCAGCAGTGATTAACCTTTAGCAATAAACGAAAGT
        91
        49942
        0.4279%
        ACGTACACTCCTGCGGGAGGCAGCAGTGATTAACCTTTAGCAATAAACGA
        91
        38917
        0.3334%
        CACTCCTGCGGGAGGCAGCAGTGATTAACCTTTAGCAATAAACGAAAGTT
        90
        42163
        0.3612%
        CGTACACTCCTGCGGGAGGCAGCAGTGATTAACCTTTAGCAATAAACGAA
        90
        38336
        0.3284%
        TCATGGGACTACTAGGGTTTCTAATCCCAGTTTGGGTCTTAGCTATTGTG
        90
        35513
        0.3042%
        TGGGACTACAAGGGTTTCTAATCCCAGTTTGGGTCTTAGCTATTGTGTGT
        90
        29281
        0.2509%
        ATCATGGGACTACCGGGGTTTCTAATCCCAGTTTGGGTCTTAGCTATTGT
        90
        31418
        0.2692%
        TGGGACTACTGGGGTTTCTAATCCCAGTTTGGGTCTTAGCTATTGTGTGT
        90
        36051
        0.3088%
        CATGGGACTACTGGGGTTTCTAATCCCAGTTTGGGTCTTAGCTATTGTGT
        90
        36188
        0.3100%
        CATGGGACTACAAGGGTTTCTAATCCCAGTTTGGGTCTTAGCTATTGTGT
        90
        28532
        0.2444%

        Adapter Content

        The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position.

        Note that only samples with ≥ 0.1% adapter contamination are shown.

        There may be several lines per sample, as one is shown for each adapter detected in the file.

        From the FastQC Help:

        The plot shows a cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. Once a sequence has been seen in a read it is counted as being present right through to the end of the read so the percentages you see will only increase as the read length goes on.

        Created with MultiQC

        Status Checks

        Status for each FastQC section showing whether results seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        FastQC assigns a status for each section of the report. These give a quick evaluation of whether the results of the analysis seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        It is important to stress that although the analysis results appear to give a pass/fail result, these evaluations must be taken in the context of what you expect from your library. A 'normal' sample as far as FastQC is concerned is random and diverse. Some experiments may be expected to produce libraries which are biased in particular ways. You should treat the summary evaluations therefore as pointers to where you should concentrate your attention and understand why your library may not look random and diverse.

        Specific guidance on how to interpret the output of each module can be found in the relevant report section, or in the FastQC help.

        In this heatmap, we summarise all of these into a single heatmap for a quick overview. Note that not all FastQC sections have plots in MultiQC reports, but all status checks are shown in this heatmap.

        Created with MultiQC

        Software Versions

        Software Versions lists versions of software tools extracted from file contents.

        SoftwareVersion
        FastQC0.11.9